BLASTP 2.2.26 [Sep-21-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= psy16599
         (73 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|3IZB|T Chain T, Localization Of The Small Subunit Ribosomal Proteins
          Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
          Translating 80s Ribosome
 pdb|3U5C|V Chain V, The Structure Of The Eukaryotic Ribosome At 3.0 A
          Resolution. This Entry Contains Proteins Of The 40s
          Subunit, Ribosome A
 pdb|3U5G|V Chain V, The Structure Of The Eukaryotic Ribosome At 3.0 A
          Resolution. This Entry Contains Proteins Of The 40s
          Subunit, Ribosome B
          Length = 87

 Score = 61.6 bits (148), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 30/62 (48%), Positives = 40/62 (64%)

Query: 8  SASNRIIAAKDHASIQIAIADVDPATGRTTDNLKMYAICGQIRRMGESDDCIGRLAKDDG 67
          SA+NRII A DHAS+QI +A VD            YA+ G +R  GESDD + RLA++DG
Sbjct: 18 SATNRIIKADDHASVQINVAKVDEEGRAIPGEYVTYALSGYVRSRGESDDSLNRLAQNDG 77

Query: 68 II 69
          ++
Sbjct: 78 LL 79


>pdb|3IZ6|T Chain T, Localization Of The Small Subunit Ribosomal Proteins
          Into A 5.5 A Cryo-Em Map Of Triticum Aestivum
          Translating 80s Ribosome
          Length = 82

 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 26/59 (44%), Positives = 35/59 (59%), Gaps = 1/59 (1%)

Query: 6  RSSASNRIIAAKDHASIQIAIADVDPATGRTTDNLKMYAICGQIRRMGESDDCIGRLAK 64
          + SA+NRII AKDHAS+QI I  VD   G        +A+ G IR  G++D  + RL +
Sbjct: 16 KCSATNRIITAKDHASVQINIGHVDE-NGLYDGRFTTFALSGFIRAQGDADSALDRLWQ 73


>pdb|3ZEY|R Chain R, High-resolution Cryo-electron Microscopy Structure Of
          The Trypanosoma Brucei Ribosome
          Length = 194

 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 26/61 (42%), Positives = 35/61 (57%), Gaps = 1/61 (1%)

Query: 9  ASNRIIAAKDHASIQIAIADVDPATGRTTDNLKMYAICGQIRRMGESDDCIGRLAKDDGI 68
          A+N +I + DH+++QIAIA+VDP  G          I G +R  GESD  I  LA   GI
Sbjct: 24 ATNSLITSFDHSAVQIAIANVDP-NGVIDGTTTTLCIAGYLRCQGESDHAINHLAIAKGI 82

Query: 69 I 69
          +
Sbjct: 83 V 83


>pdb|2XZM|Z Chain Z, Crystal Structure Of The Eukaryotic 40s Ribosomal
          Subunit In Complex With Initiation Factor 1. This File
          Contains The 40s Subunit And Initiation Factor For
          Molecule 1
 pdb|2XZN|Z Chain Z, Crystal Structure Of The Eukaryotic 40s Ribosomal
          Subunit In Complex With Initiation Factor 1. This File
          Contains The 40s Subunit And Initiation Factor For
          Molecule 2
          Length = 97

 Score = 38.5 bits (88), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 19/59 (32%), Positives = 35/59 (59%), Gaps = 1/59 (1%)

Query: 10 SNRIIAAKDHASIQIAIADVDPATGRTTDNLKMYAICGQIRRMGESDDCIGRLAKDDGI 68
          SN++I + D +S+QIAIA+V    G+ T +     +CG +R  GE+   +  + ++ G+
Sbjct: 35 SNKLIFSNDQSSVQIAIAEVG-ENGQATGSKTNVVLCGSVRSKGEAHIALENILRERGL 92


>pdb|2W62|A Chain A, Saccharomyces Cerevisiae Gas2p In Complex With
           Laminaripentaose
 pdb|2W63|A Chain A, Saccharomyces Cerevisiae Gas2p In Complex With
           Laminaritriose And Laminaritetraose
          Length = 555

 Score = 25.4 bits (54), Expect = 7.4,   Method: Composition-based stats.
 Identities = 12/37 (32%), Positives = 19/37 (51%), Gaps = 2/37 (5%)

Query: 14  IAAKDHASIQIAIADVDPATGRTTDNLKMYAICGQIR 50
           I+  +H  I +  +  D A  R  DNL  Y +CG ++
Sbjct: 201 ISHSNHRKIPVGYSTNDDAMTR--DNLARYFVCGDVK 235


>pdb|2W61|A Chain A, Saccharomyces Cerevisiae Gas2p Apostructure (E176q Mutant)
          Length = 555

 Score = 25.4 bits (54), Expect = 7.4,   Method: Composition-based stats.
 Identities = 12/37 (32%), Positives = 19/37 (51%), Gaps = 2/37 (5%)

Query: 14  IAAKDHASIQIAIADVDPATGRTTDNLKMYAICGQIR 50
           I+  +H  I +  +  D A  R  DNL  Y +CG ++
Sbjct: 201 ISHSNHRKIPVGYSTNDDAMTR--DNLARYFVCGDVK 235


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.319    0.132    0.370 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,789,029
Number of Sequences: 62578
Number of extensions: 51624
Number of successful extensions: 75
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 69
Number of HSP's gapped (non-prelim): 6
length of query: 73
length of database: 14,973,337
effective HSP length: 43
effective length of query: 30
effective length of database: 12,282,483
effective search space: 368474490
effective search space used: 368474490
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)